Genome-wide CpG density and DNA methylation analysis method (MeDIP, RRBS, and WGBS) comparisons.

ABSTRACT: Genome-wide DNA methylation analysis is one of the most common epigenetic processes analysed for genome characterization and differential DNA methylation assessment. Previous genome-wide analysis has suggested an important variable in DNA methylation methods involves CpG density. The current study was designed to investigate the CpG density in a variety of different species genomes and correlate this to various DNA methylation analysis data sets. The majority of all genomes had >90% of the genome in the low density 1-3 CpG/100 bp category, while <10% of the genome was in the higher density >5 CpG/100 bp category. Similar observations with human, rat, bird, and fish genomes were observed. The methylated DNA immunoprecipitation (MeDIP) procedure uses the anti-5-methylcytosine antibody immuno

SUBMITTER: Beck D 

PROVIDER: S-EPMC9067529 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature